Other

Other

Research projects

• Functional analysis of mitochondrial proteins in Trypanosoma brucei. Grant Agency of the Czech Republic (204/06/1558; P.I.: J. Lukeš; 2006–2008)
• Characterization of a novel protein complex involved in RNA processing and editing in the mitochondrion ofTrypanosoma brucei. Grant Agency of the Czech Republic (204/09/1667; P.I.: J. Lukeš; 2009–2012)
• The role of Trypanosoma brucei RNA binding proteins in mitochondrial transcript processing. Grant Agency of the Academy of Sciences of the Czech Republic (IAA500960705; P.I.: J. Lukeš; 2007–2010)
• Mitochondrion of Trypanosoma brucei enters the post-proteomic era. Ministry of Education, Youth and Sports (ME09005; P.I.: J. Lukeš; 2009)
• Construction of the new eukaryotic expression system. Academy of Sciences of the Czech Republic (1QS600220554; P.I.: J. Lukeš; 2005–2008)
• Model organisms as a key to the understanding of functions of disease-related human genes. Ministry of Education, Youth and Sports (2B06129; P.I.: J. Lukeš; 2006–2011)
• Genomic, transcriptomic and proteomic view of a photosynthetic algae Chromera velia, a evolutionary ‘missing link’ to the human malaria parasites. Global collaborative grant, King Abdullah University of Science and Technology, Saudi Arabia (P.I.: A. Pain and J. Lukeš; 2010-2012)

Current Events

• RNA Club 2011

List of publications (by date - from the newest)

2013

• Hashimi H., McDonald L., Stříbrná E.& Lukeš, J. (2013) Trypanosome Letm1 protein is essential for mitochondrial potassium homeostasis. Journal of biological chemistry 288: 26914-26925.
• Oborník M.& Lukeš, J. (2013) Cell biology of chromerids: autotrophic relatives to apicomplexan parasites. IRCMB 306: 333-369.
• Týč J., Votýpka J., Klepetková H., Šuláková H., Jirků M.& Lukeš, J. (2013) Growing diversity of trypanosomatid parasites of flies (Diptera: Brachycera): frequent cosmopolitism and moderate host specificity. Molecular Phylogenetics and Evolution 69: 255-264.
• Changmai P., Horáková E., Long S., Černotíková‐Stříbrná E., McDonald L.M., Bontempi E.J.& Lukeš J. (2013) Both human ferredoxins equally efficiently rescue ferredoxin deficiency in Trypanosoma brucei. Molecular Microbiology 89: 135-151.
• Paris Z., Horáková E., Rubio M.A.T., Sample P., Fleming I.M.C., Armocida S., Lukeš J.& Alfonzo J.D. (2013) The T. brucei TRM5 methyltransferase plays an essential role in mitochondrial protein synthesis and function. RNA 19, no. 5: 649-658.
• Qablan M.A., Oborník M., Petrželková K.J., Sloboda M., Shudiefat M.F., Hořín P., Lukeš J.& Modrý D. (2013) Infections by Babesia caballi and Theileria equi in Jordanian equids: epidemiology and genetic diversity. Parasitology: 1-8.
• Vávra J.& Lukeš J. (2013) Microsporidia and 'The Art of Living Together'. Advances in Parasitology 82: 253-319.
• Verner Z., Škodová I., Poláková S., Ďurišová-Benkovičová V., Horváth A.& Lukeš J. (2013) Alternative NADH dehydrogenase (NDH2): intermembrane-space-facing counterpart of mitochondrial complex I in the procyclic Trypanosoma brucei. Parasitology 140: 328-337.
• Basu S., Leonard J.C., Desai N., Mavridou D.A.I., Ho Tang K., Goddard A.D., Ginger M.L., Lukeš J.& Allen J.W.A. (2013) Divergence of Erv1-Associated Mitochondrial Import and Export Pathways in Trypanosomes and Anaerobic Protists Eukaryotic Cell 12: 343-355.
• Hashimi H., Zimmer S.L., Ammerman M.L., Read L.K.& Lukeš J. (2013) Dual core processing: MRB1 is an emerging kinetoplast RNA editing complex Trends in Parasitology 29: 91-99.
• Kořený L., Oborník M.& Lukeš J. (2013) Make it, take it or leave it: heme metabolism of parasites. PLoS Pathogens 9: e1003088.
• Maslov D.A., Votýpka J., Yurchenko V.& Lukeš J. (2013) Diversity and phylogeny of insect trypanosomatids: all that is hidden shall be revealed. Trends in Parasitology 29: 43-52.

2012

• Jirků M., Yurchenko V.Y., Lukeš J.& Maslov D.A. (2012) New Species of Insect Trypanosomatids from Costa Rica and the Proposal for a New Subfamily within the Trypanosomatidae. J. Euk. Microbiol. 59, 537-547.
• Pawlowski J., Audic S., Adl S., Bass D., Belbahri L., Berney C., Bowser S.S., Cepicka I., Decelle J., Dunthorn M., Fiore-Donno A.M., Gile G.H., Holzmann M., Jahn R., Jirků M., Keeling P.J., Kostka M., Kudryavtsev A., Lara E., Lukeš J., Mann D.G., Mitchell E.A.D., Nitsche F., Romeralo M., Saunders G.W., Simpson A.G.B., Smirnov A.V., Spouge J.L., Stern R.F., Stoeck T., Zimmermann J., Schindel D.& de Vargas C. (2012) CBOL Protist Working Group: Barcoding Eukaryotic Richness beyond the Animal, Plant, and Fungal Kingdoms. PLoS Biol. 10, 1-5.
• Adl S.M., Simpson A.G.B., Lane C.E., Lukeš J., Bass D., Bowser S.S., Brown M.W., Burki F., Dunthorn M., Hampl V., Heiss A., Hoppenrath M., Lara E., LeGall L., Lynn D.H., McManus H., Mitchell E.A.D., Mozley-Stanridge S.E., Wegener Parfrey L., Pawlowski J., Rueckert S., Shadwick L., Schoch C.L., Smirnov A.& Spiegel F.W. (2012) The revised classification of eukaryotes.*J. Euk. Microbiol.* 59, 429-493.
• Flegontov P., Lukes J. 2012: Mitochondrial Genomes of Photosynthetic Euglenids and Alveolates Advances in Botanical Research 63: 127-153.
• Kafková L., Ammerman M.L., Faktorová D., Fisk J.C., Zimmer S.L., Sobotka R., Read L.K., Lukeš J., Hashimi H. 2012: Functional characterization of two paralogs that are novel RNA binding proteins influencing mitochondrial transcripts of Trypanosoma brucei. RNA 18: 1-16.
• Burki F., Flegontov P., Oborník M., Cihlár J., Pain A., Lukes J., Keeling P.J. 2012: Re-evaluating the Green versus Red Signal in Eukaryotes with Secondary Plastid of Red Algal Origin. Genome Biol. Evol. 6: 626-635.
• Ammerman M.L., Downey K.M., Hashimi H., Fisk J.C., Tomasello D.L., Faktorova D., Kafkova L., King T., Lukes J., Read L.K. 2012: Architecture of the trypanosome RNA editing accessory complex MRB1. Nucleic Acids Res. 40: 5637-5650.
• Tsaousis A.D., Ollagnier de Choudens S., Gentekaki E., Long S., Gaston D., Stechmann A., Vinella D., Py B., Fontecave M., Barras F., Luke
  s J., Roger A.J. 2012: Evolution of Fe/S cluster biogenesis in the anaerobic parasite Blastocystis. PNAS 109: 10426–10431.
• Gnipová A., Panicucci B., Paris Z., Verner Z., Horváth A., Lukeš J., Zíková A. 2012: Disparate phenotypic effects from the knockdown of various Trypanosoma brucei cytochrome c oxidase subunits. Molecular and Biochemical Parasitology 184: 90–98.
• Votypka J., Klepetkova H., Yurchenko V.Y., Horak A., Lukes J., & Maslov D.A. (2012) Cosmopolitan Distribution of a Trypanosomatid Leptomonas pyrrhocoris. Protist 163: 616-631
• Votypka J., Klepetkova H., Jirku M., Kment P., & Lukes J. (2012) Phylogenetic relationships of trypanosomatids parasitising true bugs (Insecta: Heteroptera) in sub-Saharan Africa. International Journal for Parasitology 42: 489-500
• Qablan M.A., Sloboda M., Jirku M., Obornik M., Dwairi S., Amr Z.S., Horin P., Lukes J., & Modry D. (2012) Quest for the piroplasms in camels: Identification of Theileria equi and Babesia caballi in Jordanian dromedaries by PCR. Veterinary Parasitology 186: 456-460
• Lai D.-H., Bontempi E.J. & Lukeš J. (2012) Trypanosoma brucei solanesyl-diphosphate synthase localizes to the mitochondrion. Molecular & Biochemical Parasitology 183: 189-192
• Flegontova O., Lukeš J. & Flegontov P. (2012) Lack of evidence for integration of Trypanosoma cruzi minicircle DNA in South American human genomes. International Journal for Parasitology 42: 437-441
• Montagnes D., Roberts E., Lukeš J. & Lowe Ch. (2012) The rise of model protozoa. Trends in Microbiology 20: 184-191
• Kořený L., Sobotka R., Kovářová J., Gnipová A., Flegontov P., Horváth A., Oborník M., Ayala F.J. & Lukeš J. (2012) Aerobic kinetoplastid flagellate Phytomonas does not require heme for viability. PNAS 109: 3808–3813
• Oborník M., Modrý D., Lukeš M., Černotíková-Stříbrná E., Cihlář J., Tesařová M., Kotabová E., Vancová M., Prášil O., Lukeš J. (2012) Morphology, Ultrastructure and Life Cycle of Vitrella brassicaformis n. sp., n. gen., a Novel Chromerid from the Great Barrier Reef. Protist 163: 306-323.
• Docampo R, Lukeš J. (2012) Trypanosomes and the solution to a 50-year mitochondrial calcium mystery. Trends in Parasitology 28: 31-37.
• Jirků M., Pomajbíková K., Petrželková K.J., Hůzová Z., Modrý D., Lukeš J. (2012) Detection of Plasmodium spp. in human feces. Emerging Infectious Diseases 18: 634–636.

2011

• Flegontov P., Gray M.W., Burger G. & Lukeš J. (2011) Gene fragmentation: a key to mitochondrial genome evolution in Euglenozoa?. Curr Genet 57: 225–232
• Long S., Changmai P., Tsaousis A.D., Skalický T., Verner Z., Wen Y.-Z., Roger A.J. & Lukeš J. (2011) Stage-specific requirement for Isa1 and Isa2 proteins in the mitochondrion of Trypanosoma brucei and heterologous rescue by human and Blastocystis orthologues. Mol. Microbiol. 81: 1403–1418
• Szabová J., Růžička P., Verner Z., Hampl V. & Lukeš J. (2011) Experimental Examination of EFL and MATX Eukaryotic Horizontal Gene Transfers: Coexistence of Mutually Exclusive Transcripts Predates Functional Rescue. Mol. Biol. Evol. 28: 2371–2378
• Alfonzo J.D. & Lukeš J. (2011) Assembling Fe/S-clusters and modifying tRNAs: ancient co-factors meet ancient adaptors. Trends Parasitol. 27: 234–237
• Tanifuji G, Kim E., Onodera N.T., Gibeault R., Dlutek M., Cawthorn R.J., Fiala I., Lukeš J., Greenwood S.J. & Archibald J.M. (2011) Genomic Characterization of Neoparamoeba pemaquidensis (Amoebozoa) and Its Kinetoplastid Endosymbiont. Eukaryot. Cell 10: 1143–1146
• Lukeš J., Archibald J.M., Keeling P.J., Doolittle W.F. & Gray M.W. (2011) How a Neutral Evolutionary Ratchet Can Build Cellular Complexity. IUBMB. 63(7), 528–537
• Doolittle W.F., Lukeš J., Archibald J.M., Keeling P.J. & Gray M.W. (2011) Does constructive neutral evolution play an important role in the origin of cellular complexity? *BioEssays* 33, 427-429
• Michelle L. Ammerman, Hassan Hashimi, Lucie Novotná, Zdeňka Čičová, Sarah M. Mcevoy, Julius Lukeš & Laurie K. Read (2011) MRB3010 is a core component of the MRB1 complex that facilitates an early step of the kinetoplastid RNA editing process. RNA. 17, 865-877
• Paris Z., Hashimi H., Lun S., Alfonzo J.D. & Lukeš J. (2011) Futile import of tRNAs and proteins into the mitochondrion of Trypanosoma brucei evansi. Mol. Biochem. Parasitol. 176, 116-120
• Verner Z., Čermáková P., Škodová I., Kriegová E., Horváth A. & Lukeš J. (2011) Complex I (NADH:ubiquinone oxidoreductase) is active in but non-essential for procyclic Trypanosoma brucei. Mol. Biochem. Parasitol. 175, 196-200
• Richterová L., Vávrová Z. & Lukeš J. (2011) DEAD-box RNA helicase is dispensable for mitochondrial translation in Trypanosoma brucei. Experimental Parasitol. 127, 300-303.
• Vlček Č., Marande W., Teijeiro S., Lukeš J. & Burger G. (2011) Systematically fragmented genes in a multipartite mitochondrial genome. Nucl. Acids Res. 39, 979-988
• Oborník M., Vancová M., Lai D.-H., Janouškovec J., Keeling P.J. & Lukeš J. (2011) Morphology and ultrastructure of multiple life cycle stages of the photosynthetic relative of Apicomplexa, Chromera velia. Protist 162, 115-130.

2010

• Lun Z.-R., Lai D.-H., Li F.-J., Lukeš J. & Ayala F.J. (2010) Trypanosoma brucei: two steps to spread out from Africa. Trends Parasitol. 26, 434-437.
• Lukeš J., Hashimi H., Verner Z. & Čičová Z. (2010) The remarkable mitochondrion of trypanosomes and related flagellates. In: Structures and organelles in pathogenic protists (ed. De Souza W.). Springer-Verlag Berlin, Heidelberg; pp. 228-252
• Janouškovec J., Horák A., Oborník M., Lukeš J. & Keeling P.J. (2010) A common red algal origin of the apicomplexan, dinoflagellate and heterokont plastids. Proc. Natl. Acad. Sci. USA 107, 10949-10954
• Gray M.W., Lukeš J., Archibald J.M., Keeling P.J. & Doolittle W.F. (2010) Irremediable complexity? Science 330, 920-921.
• Lukeš J. & Raper J. (2010) Prophylactic antiparasitic transgenosis for human parasitic disease? Mol. Therapy 18, 1745-1747
• Gazdag M., Cirstea I., Breitling R., Lukeš J., Blankenfeldt W. & Alexandrov K. (2010) Purification and crystallization of human Cu/Zn superoxide dismutase recombinantly produced in the protozoan Leishmania tarentolae. Acta Crystalograph. F66, 871-877
• Paris Z., Changmai P., Rubio M.A.T., Zíková A., Stuart K.D., Alfonzo J.D. & Lukeš J. (2010) The Fe/S cluster assembly protein Isd11 is essential for tRNA thiolation in Trypanosoma brucei. J. Biol. Chem. 285, 22394-22402
• Týč J., Long S., Jirků M. & Lukeš J. (2010) YCF45 protein, usually associated with plastids, is targeted into the mitochondrion of Trypanosoma brucei. Mol. Biochem. Parasitol. 173, 43-47
• Kořený L., Lukeš J. & Oborník M. (2010) Evolution of the heme synthetic pathway in kinetoplastid flagellates: An essential pathway that is not essential after all? Int. J. Parasitol. 40, 149-156
• Keeling P.J., Leander B.S. & Lukeš J. (2010) Reply to Speijer et al.: Does complexity necessarily arise from selective advantage? *Proc. Natl. Acad. Sci. USA* 107, E26
• Maslov D.A., Yurchenko V.Y., Jirků M. & Lukeš J. (2010) Two new species of trypanosomatid parasites isolated from Heteroptera in Costa Rica. J. Euk. Microbiol. 57, 177-188.
• Verner Z., Paris Z. & Lukeš J.(2010) Mitochondrial membrane potential-based genome-wide RNAi screen of Trypanosoma brucei. Parasitol. Res. 106, 1241-1244.
• Simpson L., Aphasizhev R., Lukeš J. & Cruz-Reyes J. (2010) Guide to the nomenclature of kinetoplastid editing: A proposal. Protist 161, 2-6.
• Poliak P., Van Hoewyk D., Oborník M., Zíková A., Stuart K.D., Tachezy J., Pilon M. & Lukeš J. (2010) Functions and cellular localization of cysteine desulfurase and selenocysteine lyase in Trypanosoma brucei. FEBS J. 277, 383-393.
• Votýpka J., Maslov D.A., Yurchenko V., Jirků M., Kment P., Lun Z.-R. & Lukeš J. (2010) Probing into the diversity of trypanosomatid flagellates parasitizing insect hosts in South-West China reveals both endemism and global distribution. Mol. Phyl. Evol. 54, 243-253
• Týč J., Faktorová D., Kriegová E., Jirků M., Vávrová Z., Maslov D.A. & Lukeš J. (2010) Probing for primary functions of prohibitin in Trypanosoma brucei. Int. J. Parasitol. 40, 73-83
• Hashimi H., Benkovičová V., Čermáková P., Lai D.-H., Horváth A. & Lukeš J. (2010) The assembly of F1FO-ATP synthase is disrupted upon interference of RNA editing in Trypanosoma brucei. Int. J. Parasitol. 40, 45-54

2009

• Yurchenko V.Y., Lukeš J., Jirků M. & Maslov D.A. (2009) Selective recovery of the cultivation-prone components from mixed trypanosomatid infections: a case of several novel species isolated from Neotropical Heteroptera. Int. J. Syst. Evol. Microbiol. 59, 893–909
• Wohlgamuth-Benedum J.M., Rubio M.A.T., Paris Z., Long S., Poliak P., Lukeš J. & Alfonzo J.D. (2009) Thiolation controls cytoplasmic tRNA stability and acts as a negative determinant for tRNA editing in mitochondria. J. Biol. Chem. 284, 23947-23953
• Paris Z., Rubio, M.A.T., Lukeš J. & Alfonzo J.D. (2009) Mitochondrial tRNA import in Trypanosoma brucei is independent of thiolation and the Rieske protein. RNA 15, 1398-1406
• Lukeš J., Leander B.S. & Keeling P.J. (2009) Cascades of convergent evolution: The corresponding evolutionary histories of euglenozoans and dinoflagellates. Proc. Natl. Acad. Sci. USA 106, 9963-9970
• Gile G.H., Faktorová D., Castlejohn C.A., Burger G., Lang B.F., Farmer M.A., Lukeš J. & Keeling P.J. (2009) Distribution and Phylogeny of EFL and EF-1α in Euglenozoa Suggest Ancestral Co-Occurrence Followed by Differential Loss. PLoS ONE. 4, e5162
• Hashimi H., Čičová Z., Novotná L., Wen Y.-Z. & Lukeš J. (2009) Kinetoplastid guide RNA biogenesis is dependent on subunits of the mitochondrial RNA binding complex 1 and mitochondrial RNA polymerase. RNA. 15, 588-599
• Lai D.-H., Wang Q.-P., Li Z., Lukeš J. & Lun Z.-R. (2009) Evolution of the serum resistance-associated SRA gene in African trypanosomes. Chinese Science Bulletin. 54, 1275-1278
• Foldynová-Trantírková S., Matulová J., Dötsch V., Löhr F., Cirstea I., Alexandov K., Breitling R., Lukeš J. & Trantírek L. (2009) A Cost-effective Amino-acid-type Selective Isotope Labeling of Proteins Expressed in Leishmania tarentolae. Journal of Biomolecular Structure & Dynamics. 26, 755-761
• Jirků M., Jirků M., Oborník M., Lukeš J. & Modrý D. (2009) A Model for Taxonomic Work on Homoxenous Coccidia: Redescription, Host Specificity, and Molecular Phylogeny of Eimeria ranae Dobell, 1909, with a Review of Anuran-Host Eimeria (Apicomplexa: Eimeriorina). J. Euk. Microbiol. 56, 39-51
• Jirků M., Jirků M., Oborník M., Lukeš J. & Modrý D. (2009) Goussia Labbé, 1896 (Apicomplexa, Eimeriorina) in Amphibia: Diversity, Biology, Molecular Phylogeny and Comments on the Status of the Genus. Protist 160, 123-136
• Oborník M., Janouškovec J., Chrudimský T. & Lukeš J. (2009) Evolution of the apicoplast and its hosts: From heterotrophy to autotrophy and back again. Int. J. Parasitol. 39, 1-12.

2008

• Long S., Vávrová Z. & Lukeš J. (2008) The import and function of diatom and plant frataxins in the mitochondrion of Trypanosoma brucei. Mol. Biochem. Parasitol. 162, 100-104
• Long S., Jirků M., Ayala F.J. & Lukeš J. (2008) Mitochondrial localization but not processing of human frataxin is essential for a rescue of frataxin deficiency in the excavate flagellate Trypanosoma brucei. Proc. Natl. Acad. Sci. USA 105, 13468-13473
• Long S., Jirků M., Mach J., Ginger M.L., Sutak R., Richardson D., Tachezy J. & Lukeš J. (2008) Ancestral roles of eukaryotic frataxin: mitochondrial frataxin function and heterologous expression of hydrogenosomal /Trichomonas/ homologs in trypanosomes. Mol. Microbiol. 69, 94-109
• Hashimi H., Zíková A., Panigrahi A.K., Stuart K.D. & Lukeš J. (2008) TbRGG1, a component of a novel multi-protein komplex involved in kinetoplastid RNA editing. RNA 14, 970-980
• Lai D.-H., Hashimi H., Lun Z.-R., Ayala F.J. & Lukeš J. (2008) Adaptation of Trypanosoma brucei to gradual loss of kinetoplast DNA: T. equiperdum and T. evansi are petite mutants of T. brucei. Proc. Natl. Acad. Sci. USA 105, 1999-2004
• Zíková A., Kopečná J., Schumacher M.A., Stuart K.D., Trantírek L. & Lukeš J. (2008) structure and function of the native and recombinant mitochondrial MRP1/MRP2 complex from Trypanosoma brucei. Int. J. Parasitol. 38, 901-912
• Guler J., Kriegová E., Smith T.K., Lukeš J. & Englund P.T. (2008) Mitochondrial fatty acid synthesis is required for normal mitochondrial morphology and function in Trypanosoma brucei. Mol. Microbiol. 67, 1125-1142
• Chocholová E, Jirků M. & Lukeš J. (2008) A diagnostic assay based on variable intergenic region distinguishes between Leishmania donovani and Leishmania infantum. Folia Parasitol. 55, 75-78

2007

• Yurchenko V.A., Lukeš J., Tesařová M., Jirků M. & Maslov D.A. (2007) Morphological discordance of the new trypanosomatid species phylogenetically associated with the genus Crithidia. Protist 159, 99-114
• Zamudio J.R., Mittra B., Foldynová-Trantírková S., Zeiner G.M., Lukeš J., Bujnicky J.M., Sturm N.R. & Campbell D.A. (2007) The 2’-O-ribose methyltransferase for cap 1 of spliced leader RNA and U1 small nuclear RNA in Trypanosoma brucei. Mol. Cell. Biol. 27, 6084-6092
• Herder S., Votýpka J., Jirků M., Rádrová J., Janzen C.J.& Lukeš J. (2007) Trypanosoma brucei 29-13 strain is inducible in but not permissive for the tsetse fly vector. Exp. Parasitol.
• Lukeš J., Mauricio I.L., Schönian G., Dujardin J.-C., Soteriadou K., Dedet J.-P., Kuhls K., Quispe Tintaya W., Jirků M., Chocholová E., Haralambous C., Pratlong F., Oborník M., Horák A., Ayala F.J. & Miles M.A. (2007) Evolutionary and geographical history of the Leishmania donovani complex with a revision of current taxonomy. Proc. Natl. Acad. Sci. USA 104, 9375-9380
• Čermáková P., Verner Z., Man P., Lukeš J. & Horváth A. (2007) Characterization of the NADH: ubiquinone oxidoreductase (complex I) in the trypanosomatid Phytomonas serpens (Kinetoplastida). FEBS J. 274, 3150-3158
• Roy J., Faktorová D., Lukeš J. & Burger G. (2007) Unusual mitochondrial genome structure throughout Euglenozoa. Protist 158, 385-396
• Sturm N.R., Dollet M., Lukeš J. & Campbell D.A. (2007) Meaningful sub-division of plant trypanosomes (Phytomonas spp.) based on minicircle conserved region analysis. Infect., Genet. & Evol. 7, 570-576
• Svobodová M., Zídková L., Čepička I., Oborník M., Lukeš J. & Votýpka J. (2007) Sergeia podlipaevi gen. nov., sp. nov. (Trypanosomatidae, Kinetoplastida): a new parasite of the biting midges (Ceratopogonidae, Diptera). Int. J. Syst. Evol. Microbiol. 57, 423-432
• Roy J., Faktorová D., Benada O., Lukeš J. & Burger G. (2007) Description of Rhynchopus euleeides n. sp. (Diplonemea), a free-living, marine euglenozoan. J. Euk. Microbiol. 54, 137-145
• Zemanová E., Jirků M., Mauricio I.L., Horák A., Miles M.A. & Lukeš J. (2007) The Leishmania donovani complex: Genotypes of five metabolic enzymes (ICD, ME, MPI, G6PDH, FH), new targets for multilocus sequence typing. Int. J. Parasitol. 37, 149-160

2006

• Vávra J., Horák A., Modrý D., Lukeš J. & Koudela B. (2006) Trachipleistophora extenrec, n. sp., a new microsporidian (Fungi: Microsporidia) infecting mammals. J. Euk. Microbiol. 3, 464-476
• Yurchenko V.A., Lukeš J., Jirků M., Zeledón R. & Maslov D.A. (2006) Leptomonas costaricensis sp.n. (Kinetoplastea: Trypanosomatidae), a member of the novel phylogenetic group of insect trypanosomatids closely related to the genus Leishmania. Parasitology 133, 537-546
• Šmíd O., Horáková E., Vilímová V., Hrdý I., Cammack R., Horváth A., Lukeš J. & Tachezy J. (2006) Knock-downs of mitochondrial iron-sulfur cluster assembly proteins IscS and IscU
• Schumacher M.A., Karamooz E., Zíková A., Trantírek L. & Lukeš J. (2006) Crystal structures of Trypanosoma brucei MRP1/MRP2 guide-RNA-binding complex reveals RNA matchmaking mechanism. Cell 126, 701-711
• Zíková A., Horáková E., Jirků M., Dunajčíková P. & Lukeš J. (2006) The effect of down- regulation of mitochondrial RNA-binding proteins MRP1 and MRP2 on respiratory complexes in procyclic Trypanosoma brucei. Mol. Biochem. Parasitol. 149, 65-73
• Wijová M., Moravec F., Horák A. & Lukeš J. (2006) Evolutionary relationships of Spirurina (Nematoda: Chromadorea: Rhabditida) with special emphasis on dracunculoid nematodes inferred from SSU rRNA gene sequences. Int. J. Parasitol. 36, 1067-1075
• Lukeš J., Paris Z., Regmi S., Breitling R., Mureev S., Kushnir S., Pyatkov K., Jirků M. & Alexandrov K.A. (2006) Translational initiation in Leishmania tarentolae and Phytomonas serpens (Kinetoplastida) is strongly influenced by pre-ATG triplet and its 5‘ sequence context. Mol. Biochem. Parasitol. 148, 125-132
• Mauricio I.L., Yeo M., Baghaei M., Doto D., Silk R., Pratlong F., Zemanová E., Dedet J.-P., Lukeš J. & Miles M.A. (2006) Towards multi locus sequence typing in the Leishmania donovani complex: resolving genotypes and haplotypes for five polymorphic metabolic enzymes (ASAT, GP1, NH1, NH2, PGD). Int. J. Parasitol. 36, 757-769
• Simpson A.G.B., Stevens J.R. & Lukeš J. (2006) The evolution and diversity of kinetoplastid flagellates. Trends Parasitol. 22, 168-174
• Jirků M., Zemanová E., Al-Jawabreh A., Schönian G. & Lukeš J. (2006) Development of a direct species-specific PCR assay for differential diagnosis of Leishmania tropica.
• Kopečná J., Jirků M., Oborník M., Tokarev Z.S., Lukeš J. & Modrý D. (2006) Phylogenetic analysis of coccidian parasites from invertebrates: Search for missing links. Protist 157, 173-183
• Li F.-J., Lai D.-H., Lukeš J., Chen X.-G. & Lun Z.-R. (2006) Doubts about Trypanosoma equiperdum strains classed as Trypanosoma brucei or Trypanosoma evansi.
• Yurchenko V., Lukeš J., Xu X. & Maslov D.A. (2006) An integrated morphological and molecular approach to a new species description in the Trypanosomatidae: the case of Leptomonas podlipaevi n.sp., a parasite of Boisea rubrolineata (Hemiptera: Rhopalidae). J. Euk. Microbiol. 53, 1-9

2005

• Lukeš J., Hashimi H. & Zíková A. (2005) Unexplained complexity of the mitochondrial genome and transcriptome in kinetoplastid flagellates. Curr. Genet. 48, 277-299
• Horváth A., Horáková E., Dunajčíková P., Verner Z., Pravdová E., Šlapetová I., Cuninková L. & Lukeš J. (2005) Down-regulation of the nuclear-encoded subunits of the complexes III and IV disrupts their respective complexes but not complex I in procyclic Trypanosoma brucei. Mol. Microbiol. 58, 116-130
• Marande W., Lukeš J. & Burger G. (2005) Unique mitochondrial genome structure in diplonemids, the sister group of kinetoplastids. Eukaryot. Cell 4, 1137-1146
• Lukeš J., Horák A. & Scholz T. (2005) Helminth genome projects: all or nothing.
• Foldynová-Trantírková S., Paris Z., Sturm N.R., Campbell D.A. & Lukeš J. (2005) The Trypanosoma brucei La protein is a candidate poly(U) shield protein that impacts spliced leader RNA maturation and tRNA intron removal. Int. J. Parasitol. 35, 359-366
• Wijová M., Moravec F., Horák A., Modrý D. & Lukeš J. (2005) Phylogenetic position of Dracunculus medinensis and some related nematodes inferred from 18S rRNA. Parasitol. Res. 96, 133-135
• Vondrušková E., van den Burg J., Zíková A., Ernst N.L., Stuart K., Benne R. & Lukeš J. (2005) RNA interference analyses suggest a transcript-specific regulatory role for MRP1 and MRP2 in RNA editing and other RNA processing in Trypanosoma brucei. J. Biol. Chem. 280, 2429-2438

2004

• Votýpka J., Lukeš J. & Oborník M. (2004) Phylogenetic relationship of Trypanosoma corvi and other Old World avian trypanosomes. Acta Protozool. 43, 225-231
• Zemanová E., Jirků M., Mauricio I.L., Miles M.A. & Lukeš J. (2004) Genetic polymorphism within the Leishmania donovani complex: correlation with geographical origin.
• Podlipaev S.A., Sturm N.R., Fiala I., Fernandes O., Westenberger S.J., Dollet M., Campbell D.A. & Lukeš J. (2004) Diversity of insect trypanosomatids assessed from the spliced leader RNA and 5S rRNA genes and intergenic regions. J. Euk. Microbiol. 51, 283-290
• Avliyakulov N.K., Lukeš J. & Ray D.S. (2004). Mitochondrial histone-like DNA-binding proteins are essential for normal cell growth and mitochondrial function in Crithidia fasciculata. Eukaryot. Cell 3, 518-526
• Podlipaev S.A., Votýpka J., Jirků M., Svobodová M. & Lukeš J. (2004). Herpetomonas ztiplika n.sp. (Kinetoplastida: Trypanosomatidae) – parasite of the blood-sucking biting midge Culicoides kibunensis Tokunaga, 1937 (Diptera: Ceratopogonidae). J. Parasitol. 90, 342-347
• Zeiner G., Foldynová S., Sturm N.R., Lukeš J. & Campbell D.A. (2004). SmD1 is required for spliced leader RNA biogenesis. Eukaryot. Cell 3, 241-244

2003

• Dávila A.M.R. & Lukeš J. (2003) Towards a framework for the evolutionary genomics of Kinetoplastids: what kind of data and how much? Kinet. Biol. & Dis. 2, 16-19
• Zíková A., Vancová M., Jirků M. & Lukeš J. (2003). Cruzella marina (Bodonina, Kinetoplastida): non-catenated structure of poly-kinetoplast DNA. Exp. Parasitol. 104: 159-161
• Gažiová I. & Lukeš J. (2003). Mitochondrial and nuclear localization of topoisomerase II in the flagellate Bodo saltans (Kinetoplastida), a species with non-catenated kinetoplast DNA. J. Biol. Chem. 278: 10900-10907
• Šlapeta J.R., Modrý D., Votýpka J., Jirků M., Lukeš J. & Koudela B. (2003). Evolutionary relationships among cyst-forming coccidia Sarcocystis spp. (Alveolata: Apicomplexa: Coccidea) in endemic African tree vipers and perspective for evolution of heteroxenous life cycle. Mol. Phyl. Evol. 27: 464-475
• Dyková I., Fiala I., Lom J. & Lukeš J. (2003). Perkinsiella amoebae-like endosymbionts of Neoparamoeba spp., relatives of the kinetoplastid Ichthyobodo. Europ. J. Protistol. 39: 37-52

2002

• Maslov D.A., Zíková A., Kyselová I. & Lukeš J. (2002). A novel nuclear-encoded putative subunit of the cytochrome c oxidase complex in trypanosomatids. Mol. Biochem. Parasitol. 125: 113-125
• Lukeš J., Guilbride D.L., Votýpka J., Zíková A., Benne R. & Englund P.T. (2002). The kinetoplast DNA network: Evolution of an improbable structure. Eukaryot. Cell 1: 495-502
• Modrý D., Šlapeta J.R., Kyselová I., Hořejš R., Lukeš J., Koudela B. (2002) Dog shedding oocysts of Neospora caninum: diagnostic and phylogenetic approach to the taxonomy of related organisms. Vet. Parasitol. 109: 157-167
• Simpson A.G.B., Lukeš J., Roger A.J. (2002). The evolutionary history of kinetoplastids and their kinetoplast. Mol. Biol. Evol. 19: 2071-2083
• Votýpka J., Oborník M., Volf P., Svobodová M. & Lukeš J. (2002) Trypanosoma avium of raptors (Falconiformes): Phylogeny and identification of vectors. Parasitology 125: 253-263
• Šlapeta J.R., Kyselová I., Richardson A.O., Modrý D., Lukeš J. (2002). Phylogeny and sequence variability of the Sarcocystis singaporensis Zaman and Colley (1975) 1976 ssrDNA. Parasitol. Res. 88: 810-815
• Šlapeta J. R., Koudela B., Votýpka J., Modrý D., Hořejš R. & Lukeš J. (2002). Coprodiagnosis of Hammondia heydorni in dogs by PCR based on ITS 1 rRNA: Differentiation from morphologically indistinguishable oocysts of Neospora caninum. Vet. J. 163: 147-154
• Horváth A., Neboháčová M., Lukeš J. & Maslov D.A. (2002). Unusual polypeptide synthesis in the kinetoplast-mitochondria from Leishmania tarentolae. Identification of individual de novo translation products. J. Biol. Chem. 277: 7222-7230
• Oborník M., Van de Peer Y., Hypša V., Frickey T., Šlapeta J.R., Meyer A. & Lukeš J. (2002) Phylogenetic analyses suggest a possible lateral gene transfer from the mitochondrion to the apicoplast. Gene 285: 109-118
• Oborník M., Jirků M., Šlapeta J.R., Modrý D., Koudela B. & Lukeš J. (2002). Notes on coccidian phylogeny based on the apicoplast small subunit ribosomal RNA. Parasitol. Res. 88: 360-363
• Jirků M., Modrý D., Šlapeta J.R., Koudela B. & Lukeš J. (2002). The phylogeny of Goussia and Choleoeimeria (Apicomplexa; Eimeriorina) and the evolution of excystation structures in coccidia. Protist 153: 380-389

2001

• Santana D.M., Lukeš, J., Sturm N.R. & Campbell D.A. (2001). Two sequence classes of kinetoplastid 5S ribosomal RNA gene revealed among bodonid spliced leader RNA gene arrays. FEMS Lett. 204: 33-237
• Votýpka J., Ray D.S. & Lukeš J. (2001). Crithidia fasciculata: a test for genetic exchange. Exp. Parasitol. 99: 104-107
• Lukeš J., Hines J.C., Evans C.J., Avliyakulov N.K., Prabhu V.P., Chen J. & Ray D.S. (2001). Disruption of the Crithidia fasciculata KAP1 gene results in extensive structural rearrangement of the kinetoplast disc. Mol. Biochem. Parasitol. 117:179-186
• Dyková I., Kyselová I., Pecková H., Oborník M. & Lukeš J. (2001). Identity of Naegleria strains isolated from organs of freshwater fishes. Dis. aquat. Org. 46:115-121
• Modrý D., Šlapeta J. R., Jirků M., Oborník M., Lukeš J. & Koudela B. (2001) Phylogentic position of a renal coccidium of the European green frog, Isospora lieberkuehni Labbe, 1894 (Apicomplexa: Sarcocystidae: Toxoplasmatinae) and the taxonomic implications. Int. J. Syst. Evol. Microbiol. 51:767-772
• Šlapeta J. R., Modrý D., Votýpka J., Jirků M., Oborník M., Lukeš J. & Koudela B. (2001) Eimeria telekii n. sp. (Apicomplexa: Coccidia) from Lemniscomys striatus (Rodentia: Muridae): morphology, pathology and phylogeny. Parasitology 122: 133-145
• Maslov D.A., Podlipaev S.A. & Lukeš J. (2001). Phylogeny of the Kinetoplastida: Taxonomic problems and insights into the evolution of parasitism. Mem. Inst. Osw. Cruz 96: 397-402
• Štolba P., Jirků M. & Lukeš J. (2001) Polykinetoplast DNA structure in Dimastigella trypaniformis and Dimastigella mimosa (Kinetoplastida). Mol. Biochem. Parasitol. 13: 323-326
• Šlapeta J.R., Modrý D., Votýpka J., Jirků M., Koudela B. & Lukeš J. (2001). Multiple origin of the dihomoxenous life cycle in sarcosporidia. Int. J. Parasitol. 31: 413-417

2000

• Lukeš J. & Votýpka J. (2000). Trypanosoma avium: Novel features of the kinetoplast structure. Exp. Parasitol. 96: 178-181
• Kodedová I., Doležel D., Broučková M., Jirků M., Hypša V., Lukeš J. & Scholz T. (2000). On the phylogenetic position of the Caryophyllidea, Pseudophyllidea and Proteocephalidea (Eucestoda) inferred from 18S rRNA. Int. J. Parasitol. 30: 1109-1113
• Doležel D., Jirků M., Maslov D.A. & Lukeš J. (2000) Phylogeny of the bodonid flagellates (Kinetoplastida) based on small subunit rRNA gene sequences. Int. J. Syst. Evol. Microbiol. 50: 1943-1951
• Yurchenko V., Kolesnikov A.A. & Lukeš J. (2000) Phylogenetic analysis of Trypanosomatina (Protozoa: Kinetoplastida) based on minicircle conserved regions. Folia Parasitol. 47:1-5
• Avliyakulov N., Lukeš J., Kajava A.V., Liedberg B., Lundstrom I. & Svensson S.P.S. (2000) Suramin blocks nucleotide triphosphate binding to ribosomal protein L3 from Trypanoplasma borreli. Europ. J. Biochem. 267: 1723-1731
• Lukeš J. & Maslov D.A. (2000) Unexpectedly high variability of histone H4 gene in Leishmania. Parasitol. Res. 86: 259-261
• Blom D., de Haan A., van den Burg J., van den Berg M., Sloof P., Jirků M., Lukeš J. & Benne R. (2000) Mitochondrial minicircles in the free-living bodonid Bodo saltans contain two gRNA gene cassettes and are not found in large networks. RNA 6: 1-15

1999

• Doležel D., Koudela B., Jirků M., Hypša V., Oborník M., Votýpka J.,Modrý D., Šlapeta J.R. & Lukeš J. (1999) Phylogenetic analysis of Sarcocystis spp. of mammals and reptiles support the coevolution of Sarcocystis spp. with their final hosts. Int. J. Parasitol.. 29: 795-798
• Yurchenko V., Hobza R., Benada O. & Lukeš J. (1999) Trypanosoma avium: Large minicircles in the kinetoplast DNA. Exp. Parasitol. 92: 215-218

1998

• Maslov D.A. & Lukeš J. (1998) Searching for a tree which can be trusted. Parasitol. Today 14: 334
• Hollar L., Lukeš J. & Maslov D.A. (1998) Monophyly of endosymbiont-containing trypanosomatids: Phylogeny versus Taxonomy. J. Euk. Microbiol. 45: 293-297
• Votýpka J., Hypša V., Jirků M., Flegr J., Vávra J. & Lukeš J. (1998) Molecular phylogenetic relatedness of Frenkelia spp. (Protozoa, Apicomplexa) to Sarcocystis falcatula Stiles 1893: Is the genus Sarcocystis paraphyletic? J. Euk. Microbiol. 45: 137-141
• Lukeš J., Jirků M., Avliyakulov N. & Benada O. (1998) Pankinetoplast DNA structure in a primitive bodonid flagellate, Cryptobia helicis. EMBO J. 17: 838-846
• Blom D., de Haan A., van den Berg M., Sloof P., Jirků M., Lukeš J. & Benne R. (1998) RNA editing in the free-living bodonid Bodo saltans. Nucleic Acids Res. 26: 1205-1213

1997

• Král’ová I., van de Peer Y., Jirků M., van Ranst M., Scholz T. & Lukeš J. (1997) Phylogenetic analysis of a fish tapeworm, Proteocephalus exiguus, based on the small subunit rRNA gene. Mol. Biochem. Parasitol. 84: 263-266
• Lukeš J., Jirků M., Doležel D., Král’ová I., Hollar L. & Maslov D.A. (1997) Analysis of ribosomal RNA genes suggests that trypanosomes are monophyletic. J. Mol. Evol. 44: 521-527

1996

• Maslov D.A., Lukeš J., Jirků M. & Simpson L. (1996) Phylogeny of trypanosomes as inferred from the small and large subunit rRNAs: Implications for the evolution of parasitism in the trypanosomatid protozoa. Mol. Biochem. Parasitol. 75:197-205

1995

• Jirků M., Kolesnikov A.A., Benada O. & Lukeš J. (1995) Marine fish and ray trypanosomes have large kinetoplast minicircle DNA. Mol. Biochem. Parasitol. 73: 279-283
• Lukeš J. (1995) Goussia chalupskyi n.sp. (Apicomplexa: Eimeriidae) from the chub Leuciscus cephalus (Cyprinidae). Syst. Parasitol. 30:27-30
• Kolesnikov A.A., Jirků M., Pecková H., Polák A., Maslov D.A., Lukeš J. (1995) Analysis of kinetoplast DNA of freshwater fish trypanosomes. Folia Parasitol. 40: 424-428

1994

• Lukeš J., Arts G-J., van den Burg J., de Haan A., Opperdoes F., Sloof P. & Benne R. (1994) Novel pattern of editing regions in mitochondrial transcripts of the cryptobiid Trypanoplasma borreli. EMBO J. 13: 5086-5098
• Lukeš J. (1994) A giant merogonial stage (Apicomplexa, Coccidia) in the intestine of Blicca bjoerkna (L.)(Cyprinidae). Parasite 1: 393-395
• Lukeš J. (1994) Morphology of life cycle of Goussia bohemica n.sp. (Apicomplexa, Eimeriidae), a parasite of the goblet and epithelial cells of the gudgeon (Gobio gobio L.). Europ. J. Protistol. 30: 68-74

1993

• Lukeš J., Volf P. & Lom J. (1993) Detection of chitin in spores of Myxobolus muelleri and M. subepithelialis (Myxosporea, Myxozoa). Parasitol. Res. 79: 439-440
• Lukeš J. (1993) A coccidian (Apicomplexa, Eimeriidae) with extracytoplasmally located stages in kidney tubules of golden carp (Carassius auratus gibelio L.)(Cyprinidae). Folia Parasitol. 40: 1-7

1992

• Lukeš J. & Starý V. (1992) Ultrastructure of life cycle stages of Goussia janae (Apicomplexa, Eimeriidae) and X-ray microanalysis of accompanying precipitates. Can. J. Zool. 70: 2382-2397
• Zajíček P. & Lukeš J. (1992) Differentiation of freshwater and marine fish trypanosomes by lectin agglutinability. Folia Parasitol. 39: 195-200
• Lukeš J. (1992) Life cycle of Goussia pannonica (Molnár, 1989) (Apicomplexa, Eimeriorina), an extracytoplasmic coccidium from the white bream, Blicca bjoerkna. J. Protozool. 39: 484-494
• Lukeš J. & Kepr T. (1992) Eimeria lydiae n.sp.(Apicomplexa, Eimeriidae), a parasite of the brown trout, Salmo trutta m. fario (Salmonidae). Arch. Protistenkd. 141: 219-222

1991

• Lukeš J. & Vávra J. (1991) Microsporidium aedium n.sp., from the mosquito Aedes cantans. J. Invertebr. Pathol. 58: 274-276
• Lukeš J., Steinhagen D. & Körting W. (1991) Goussia carpelli (Apicomplexa, Eimeriorina) from cyprinid fish: Field observations and infection experiments. Angew. Parasitol. 32:149-153

1990

• Steinhagen D., Lukeš J. & Körting W. (1990) Ultrastructural observations on gamogonic stages of Goussia subepithelialis (Apicomplexa, Coccidia) from common carp Cyprinus carpio. Dis. aquat. Org. 9: 31-36
• Lukeš J. & Dyková I. (1990) Goussia janae n.sp. (Apicomplexa,Eimeriorina) in dace Leuciscus leuciscus and chub L. cephalus. Dis. aquat. Org. 8: 85-90
• Lukeš J. & Vávra J. (1990) Life cycle of Amblyospora weiseri n.sp. (Microsporidia) in Aedes cantans (Diptera, Culicidae). Europ. J. Protistol. 25: 200-208
• Volf P., Lukeš J. & Srp V. (1990) Study on the population of the warble fly, Oestromyia leporina (Pallas 1778)(Diptera, Hypodermatidae) in Bohemia. Folia Parasitol. 37: 187-190
• Lukeš J. & Vávra J. (1990) Life cycle of Amblyospora weiseri n.sp. (Microsporidia) in Aedes cantans (Diptera, Culicidae). Europ. J. Protistol. 25: 200-208